Note: scikit-bio is no longer compatible with Python 2. scikit-bio is compatible with Python 3.4 and later.

scikit-bio is currently in beta. We are very actively developing it, and backward-incompatible interface changes can and will arise. To avoid these types of changes being a surprise to our users, our public APIs are decorated to make it clear to users when an API can be relied upon (stable) and when it may be subject to change (experimental). See the API stability docs for more details, including what we mean by stable and experimental in this context.

Installing

The recommended way to install scikit-bio is via the conda package manager available in Anaconda or miniconda.

To install the latest release of scikit-bio:

conda install -c https://conda.anaconda.org/biocore scikit-bio

Alternatively, you can install scikit-bio using pip:

pip install numpy
pip install scikit-bio

You can verify your installation by running the scikit-bio unit tests:

python -m skbio.test

For users of Debian, skbio is in the Debian software distribution and may
be installed using:

sudo apt-get install python3-skbio python-skbio-doc

Getting help

To get help with scikit-bio, you should use the skbio tag on StackOverflow (SO). Before posting a question, check out SO's guide on how to ask a question. The scikit-bio developers regularly monitor the skbio SO tag.

scikit-bio development

Licensing

scikit-bio is available under the new BSD license. See
COPYING.txt for scikit-bio's license, and the
licenses directory for the licenses of third-party software that is
(either partially or entirely) distributed with scikit-bio.